// make sure individual read cigars make sense against stitched cigar
protected static void ValidateCigar(CigarAlignment stitchedCigar, CigarAlignment read1Cigar, CigarAlignment read2Cigar)
{
if (!stitchedCigar.IsSupported())
{
throw new Exception(String.Format("Unsupported cigar: {0}", stitchedCigar));
}
ValidateCigar(stitchedCigar, read1Cigar);
ValidateCigar(stitchedCigar.GetReverse(), read2Cigar.GetReverse());
}
public void ValidateCigarAignment()
{
//valid cigar string
Assert.True(new CigarAlignment("5M3D4M7I2S8M").IsSupported());
//invalid cigar string
var alignment = new CigarAlignment();
alignment.Add(new CigarOp('M', 5));
alignment.Add(new CigarOp('U', 7));
alignment.Add(new CigarOp('I', 3));
alignment.Add(new CigarOp('M', 7));
Assert.False(alignment.IsSupported());
}
